Hi Lisa
it's possible. Look at the ?h.inflated.nofix surfaces and see if there is something dramatically wrong, like the skull or cerebellum being attached to one of the hemispheres.
cheers Bruce On Fri, 22 Feb 2019, Taylor, Lisa Marie wrote:
External Email - Use CautionHi,
I saw that error too, but I am quite the novice when it comes to the technical aspects so I was not sure what that meant. I think I understand more now though.
I looked at the nifti raw file and the scan looks pretty good, better than the one I am working on right now. I did open what I could in freeview (the brainmask, WM, and T1), and I am noticing that the ventricles are quite large. Could this be posing the problem, you think? If so, can the image be salvaged?
Thanks again for your help and input!
Lisa
From: freesurfer-bounces@nmr.mgh.harvard.edu [freesurfer-bounces@nmr.mgh.harvard.edu] on behalf of Tim Schäfer [ts+ml@rcmd.org] Sent: Friday, February 22, 2019 2:18 PM To: Freesurfer support list Subject: Re: [Freesurfer] aparc+aseg fails to load in freeview
External Email - Use CautionHm, I'm not an expert, but the log says 'XL defect detected...'.
I've seen this error on 2 or 3 subjects I tried to process (out of several hundreds). Usually it happened only when the source images looked very bad even by a quick visual inspection (excessive ringing, very bad contrast, etc). I ended up just discarding them.
Did you have a look at the raw files (DICOMs)? Do they look OK?
Tim
On February 22, 2019 at 11:03 PM "Taylor, Lisa Marie" ltaylor2@uci.edu wrote:
External Email - Use CautionHi there,
I am fairly new at this but have been using freesurfer/freeview for the past two months to edit MRI images.
There is a particular file I am trying to open that fails to load the aparc+aseg volume. I've downloaded from the source and tried to run it through freesurfer again with the same error (it took nearly double the time to process than a typical file). I am not exactly sure how to figure out what/where the issue is coming from. Would you be able to help?
I am using OSX Yosemite.
I have attached the recon-all.log file to this email.
Thank you for your understanding and help in this issue.
Lisa
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